PDB Short entry for 1J8C HEADER STRUCTURAL GENOMICS 21-MAY-01 1J8C TITLE SOLUTION STRUCTURE OF THE UBIQUITIN-LIKE DOMAIN OF HPLIC-2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-LIKE PROTEIN HPLIC-2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN (RESIDUES 1-103); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PET KEYWDS UBIQUITIN-LIKE DOMAIN, STRUCTURAL GENOMICS EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR K.J.WALTERS,M.F.KLEIJNEN,A.M.GOH,G.WAGNER,P.M.HOWLEY REVDAT 3 23-FEB-22 1J8C 1 REMARK REVDAT 2 24-FEB-09 1J8C 1 VERSN REVDAT 1 20-MAR-02 1J8C 0 JRNL AUTH K.J.WALTERS,M.F.KLEIJNEN,A.M.GOH,G.WAGNER,P.M.HOWLEY JRNL TITL STRUCTURAL STUDIES OF THE INTERACTION BETWEEN UBIQUITIN JRNL TITL 2 FAMILY PROTEINS AND PROTEASOME SUBUNIT S5A. JRNL REF BIOCHEMISTRY V. 41 1767 2002 JRNL REFN ISSN 0006-2960 JRNL PMID 11827521 JRNL DOI 10.1021/BI011892Y REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851, X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER (X-PLOR), BRUNGER (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON 983 NOE REMARK 3 -DERIVED DISTANCE RESTRAINTS, 44 DIHEDRAL ANGLE RESTRAINTS, 23 REMARK 3 HYDROGEN BONDS REMARK 4 REMARK 4 1J8C COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-MAY-01. REMARK 100 THE DEPOSITION ID IS D_1000013486. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 100 MM NACL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1.0 MM PROTEIN REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; 3D_13C- REMARK 210 SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : DMX; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 12 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED BY USING STANDARD TRIPLE REMARK 210 -RESONANCE NMR SPECTROSCOPY. REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 ARG A 104 REMARK 465 ASP A 105 REMARK 465 PRO A 106 REMARK 465 ASN A 107 REMARK 465 SER A 108 REMARK 465 SER A 109 REMARK 465 SER A 110 REMARK 465 VAL A 111 REMARK 465 ASP A 112 REMARK 465 LYS A 113 REMARK 465 TYR A 114 REMARK 465 ALA A 115 REMARK 465 ALA A 116 REMARK 465 ALA A 117 REMARK 465 LEU A 118 REMARK 465 GLU A 119 REMARK 465 HIS A 120 REMARK 465 HIS A 121 REMARK 465 HIS A 122 REMARK 465 HIS A 123 REMARK 465 HIS A 124 REMARK 465 HIS A 125 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 1 ALA A 2 -44.77 -147.96 REMARK 500 1 GLU A 3 -175.74 52.11 REMARK 500 1 PRO A 13 -169.44 -73.60 REMARK 500 1 SER A 14 94.12 -166.77 REMARK 500 1 GLN A 21 -174.79 52.29 REMARK 500 1 SER A 23 66.91 -119.80 REMARK 500 1 ALA A 24 82.56 -167.40 REMARK 500 1 ALA A 25 83.22 52.59 REMARK 500 1 ALA A 28 26.86 -155.63 REMARK 500 1 GLU A 29 81.04 51.77 REMARK 500 1 PRO A 30 38.75 -81.97 REMARK 500 1 ILE A 32 99.88 -58.04 REMARK 500 1 LYS A 41 -46.53 -174.67 REMARK 500 1 GLU A 42 -179.20 -173.60 REMARK 500 1 ASN A 51 63.42 -115.01 REMARK 500 1 LYS A 66 81.30 68.72 REMARK 500 1 SER A 67 -65.40 -152.98 REMARK 500 1 THR A 69 -63.91 -145.95 REMARK 500 1 LYS A 79 -178.46 -59.80 REMARK 500 1 LEU A 81 81.45 -65.07 REMARK 500 1 LYS A 82 -155.42 -137.98 REMARK 500 1 HIS A 90 -41.55 -173.35 REMARK 500 1 ASP A 94 31.69 -179.97 REMARK 500 2 ASN A 4 89.77 -161.80 REMARK 500 2 GLU A 6 88.36 -165.54 REMARK 500 2 SER A 8 -164.56 -118.00 REMARK 500 2 ALA A 19 -42.82 -132.69 REMARK 500 2 ALA A 20 50.51 -90.16 REMARK 500 2 GLN A 21 47.51 -168.87 REMARK 500 2 ALA A 26 62.56 -169.16 REMARK 500 2 GLU A 29 79.37 -151.95 REMARK 500 2 PRO A 30 43.00 -78.77 REMARK 500 2 LYS A 41 -42.00 -175.61 REMARK 500 2 LYS A 66 81.69 69.33 REMARK 500 2 SER A 67 -75.00 -155.04 REMARK 500 2 THR A 69 -62.01 -139.99 REMARK 500 2 LEU A 81 83.33 -66.43 REMARK 500 2 LYS A 82 -147.07 -148.96 REMARK 500 2 HIS A 90 -30.78 176.54 REMARK 500 2 ASP A 94 35.13 179.71 REMARK 500 3 ALA A 2 44.78 -156.30 REMARK 500 3 SER A 8 -171.41 52.51 REMARK 500 3 PRO A 13 -82.24 -73.26 REMARK 500 3 SER A 14 -71.29 -141.01 REMARK 500 3 GLN A 21 -176.11 -58.82 REMARK 500 3 ALA A 25 -174.37 51.71 REMARK 500 3 ALA A 28 -54.39 -166.23 REMARK 500 3 GLU A 29 71.11 52.67 REMARK 500 3 LYS A 31 67.25 -69.46 REMARK 500 3 LYS A 41 -46.86 -174.70 REMARK 500 REMARK 500 THIS ENTRY HAS 397 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 12 0.25 SIDE CHAIN REMARK 500 1 ARG A 15 0.23 SIDE CHAIN REMARK 500 1 ARG A 64 0.22 SIDE CHAIN REMARK 500 2 ARG A 12 0.31 SIDE CHAIN REMARK 500 2 ARG A 15 0.27 SIDE CHAIN REMARK 500 2 ARG A 64 0.21 SIDE CHAIN REMARK 500 3 ARG A 12 0.23 SIDE CHAIN REMARK 500 3 ARG A 15 0.28 SIDE CHAIN REMARK 500 3 ARG A 64 0.27 SIDE CHAIN REMARK 500 4 ARG A 12 0.31 SIDE CHAIN REMARK 500 4 ARG A 15 0.25 SIDE CHAIN REMARK 500 4 ARG A 64 0.31 SIDE CHAIN REMARK 500 5 ARG A 12 0.21 SIDE CHAIN REMARK 500 5 ARG A 15 0.21 SIDE CHAIN REMARK 500 5 ARG A 64 0.23 SIDE CHAIN REMARK 500 6 ARG A 12 0.32 SIDE CHAIN REMARK 500 6 ARG A 15 0.23 SIDE CHAIN REMARK 500 6 ARG A 64 0.32 SIDE CHAIN REMARK 500 7 ARG A 12 0.22 SIDE CHAIN REMARK 500 7 ARG A 15 0.25 SIDE CHAIN REMARK 500 7 ARG A 64 0.31 SIDE CHAIN REMARK 500 8 ARG A 12 0.27 SIDE CHAIN REMARK 500 8 ARG A 15 0.32 SIDE CHAIN REMARK 500 8 ARG A 64 0.23 SIDE CHAIN REMARK 500 9 ARG A 12 0.22 SIDE CHAIN REMARK 500 9 ARG A 15 0.29 SIDE CHAIN REMARK 500 9 ARG A 64 0.32 SIDE CHAIN REMARK 500 10 ARG A 12 0.28 SIDE CHAIN REMARK 500 10 ARG A 15 0.26 SIDE CHAIN REMARK 500 10 ARG A 64 0.23 SIDE CHAIN REMARK 500 11 ARG A 12 0.21 SIDE CHAIN REMARK 500 11 ARG A 15 0.30 SIDE CHAIN REMARK 500 11 ARG A 64 0.31 SIDE CHAIN REMARK 500 12 ARG A 12 0.32 SIDE CHAIN REMARK 500 12 ARG A 15 0.26 SIDE CHAIN REMARK 500 12 ARG A 64 0.31 SIDE CHAIN REMARK 500 13 ARG A 12 0.31 SIDE CHAIN REMARK 500 13 ARG A 15 0.22 SIDE CHAIN REMARK 500 13 ARG A 64 0.32 SIDE CHAIN REMARK 500 14 ARG A 12 0.31 SIDE CHAIN REMARK 500 14 ARG A 15 0.21 SIDE CHAIN REMARK 500 14 ARG A 64 0.29 SIDE CHAIN REMARK 500 15 ARG A 12 0.32 SIDE CHAIN REMARK 500 15 ARG A 15 0.26 SIDE CHAIN REMARK 500 15 ARG A 64 0.21 SIDE CHAIN REMARK 500 16 ARG A 12 0.31 SIDE CHAIN REMARK 500 16 ARG A 15 0.27 SIDE CHAIN REMARK 500 16 ARG A 64 0.30 SIDE CHAIN REMARK 500 17 ARG A 12 0.26 SIDE CHAIN REMARK 500 17 ARG A 15 0.31 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 60 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE C-TERMINUS RESIDUES 104-125 WERE ADDED AS LINKER AND REMARK 999 HIS TAG FOR EASE OF PURIFICATION. DBREF 1J8C A 1 103 UNP Q9UHD9 UBQL2_HUMAN 1 103 SEQADV 1J8C ARG A 104 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C ASP A 105 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C PRO A 106 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C ASN A 107 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C SER A 108 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C SER A 109 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C SER A 110 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C VAL A 111 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C ASP A 112 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C LYS A 113 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C TYR A 114 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C ALA A 115 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C ALA A 116 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C ALA A 117 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C LEU A 118 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C GLU A 119 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C HIS A 120 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C HIS A 121 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C HIS A 122 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C HIS A 123 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C HIS A 124 UNP Q9UHD9 SEE REMARK 999 SEQADV 1J8C HIS A 125 UNP Q9UHD9 SEE REMARK 999 SEQRES 1 A 125 MET ALA GLU ASN GLY GLU SER SER GLY PRO PRO ARG PRO SEQRES 2 A 125 SER ARG GLY PRO ALA ALA ALA GLN GLY SER ALA ALA ALA SEQRES 3 A 125 PRO ALA GLU PRO LYS ILE ILE LYS VAL THR VAL LYS THR SEQRES 4 A 125 PRO LYS GLU LYS GLU GLU PHE ALA VAL PRO GLU ASN SER SEQRES 5 A 125 SER VAL GLN GLN PHE LYS GLU ALA ILE SER LYS ARG PHE SEQRES 6 A 125 LYS SER GLN THR ASP GLN LEU VAL LEU ILE PHE ALA GLY SEQRES 7 A 125 LYS ILE LEU LYS ASP GLN ASP THR LEU ILE GLN HIS GLY SEQRES 8 A 125 ILE HIS ASP GLY LEU THR VAL HIS LEU VAL ILE LYS ARG SEQRES 9 A 125 ASP PRO ASN SER SER SER VAL ASP LYS TYR ALA ALA ALA SEQRES 10 A 125 LEU GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 SER A 53 LYS A 66 1 14 SHEET 1 A 5 LYS A 43 VAL A 48 0 SHEET 2 A 5 ILE A 33 LYS A 38 -1 N VAL A 35 O PHE A 46 SHEET 3 A 5 LEU A 96 ILE A 102 1 O LEU A 96 N THR A 36 SHEET 4 A 5 LEU A 72 PHE A 76 -1 N ILE A 75 O HIS A 99 SHEET 5 A 5 LYS A 79 LEU A 81 -1 O LEU A 81 N LEU A 74 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000